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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttgtcaactcaatactttattattgtaaatgtataatgcactatgttatatgtatttaatttttcatgacctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG

Basic information

species Glycine max
transcript GLYMA16G08080.1
intron # 6
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208264634|gb|GE063954.1|GE063954
EST:     AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTGgtatgttttg ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|208102908|gb|GD900898.1|GD900898
EST:     AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTGgtatgttttg ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|10237923|gb|BE806811.1|BE806811
EST:     AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTGgtatgttttg ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|207754685|gb|GD729308.1|GD729308
EST:     GAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: GAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTGgtatgttttg ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|10237927|gb|BE806815.1|BE806815
EST:     AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: AGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACGGTGgtatgttttg ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatgtataatgcactatgttatatgtatttaatttttcatgacctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG
                            atttaat  putative branch site (score: 4)
                                            cctct  putative PPT
              actatgttatatgtat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttttgtcaactcaatactttattattgtaaatgtataatgcactatgttatatgtatttaatttttcatgacctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG